Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: gdsfmt

https://packages.ecosyste.ms/registries/bioconductor.org/packages/gdsfmt

R Interface to CoreArray Genomic Data Structure (GDS) Files
1 version
Latest release: 12 months ago
17 dependent packages
183,556 downloads total

Papers Mentioning gdsfmt 23

10.1093/bioinformatics/bty713

Bigmelon: tools for analysing large DNA methylation datasets
Cited by: 47
Author(s): T.J. Gorrie-Stone, Melissa Smart, Ayden Saffari, Karim Malki, Eilís Hannon, Joe Burrage, Jonathan Mill, Meena Kumari, Leonard C Schalkwyk
Software Mentions: 13
Published: about 6 years ago

10.3389/fmicb.2020.00926

Chromosome Architecture and Gene Content of the Emergent Pathogen Acinetobacter haemolyticus
Cited by: 3
Author(s): Semiramis Castro-Jaimes, Elena Bello-López, Consuelo Velázquez-Acosta, Patricia Volkow-Fernández, Patricia Lozano-Zaraín, Santiago Castillo-Ramírez, Miguel A. Cevallos
Software Mentions: 11
Published: over 4 years ago

10.3389/fgene.2020.00260

IntAssoPlot: An R Package for Integrated Visualization of Genome-Wide Association Study Results With Gene Structure and Linkage Disequilibrium Matrix
Cited by: 20
Author(s): Fengyu He, Shuangcheng Ding, Hongwei Wang, Feng Qin
Software Mentions: 10
Published: over 4 years ago

10.7554/eLife.69249

A population-level invasion by transposable elements triggers genome expansion in a fungal pathogen
Cited by: 38
Author(s): Ursula Oggenfuss, Thomas Badet, Thomas Wicker, Fanny E. Hartmann, Navreet Singh, Leen Nanchira Abraham, Petteri Karisto, Tiziana Vonlanthen, Christopher C. Mundt, Bruce A. McDonald, Daniel Croll
Software Mentions: 9
Published: about 3 years ago

10.3389/fpls.2018.00029

Population Genetic Structure in Glyphosate-Resistant and -Susceptible Palmer Amaranth (Amaranthus palmeri) Populations Using Genotyping-by-sequencing (GBS)
Cited by: 26
Author(s): Anita Küpper, Harish Manmathan, Darci A. Giacomini, Eric Patterson, William B. McCloskey, Todd A. Gaines
Software Mentions: 7
Published: over 6 years ago

10.1002/ece3.7654

Looking for the needle in a downsized haystack: Whole‐exome sequencing unravels genomic signals of climatic adaptation in Douglas‐fir (Pseudotsuga menziesii)
Cited by: 1
Author(s): Jan-Peter George, Silvio Schueler, Michael Grabner, Sandra Karanitsch-Ackerl, Konrad Mayer, Michael Stierschneider, Lambert Weißenbacher, Marcela van Loo
Software Mentions: 7
Published: over 3 years ago

10.1186/s12864-020-6616-y

Association and linkage mapping to unravel genetic architecture of phenological traits and lateral bearing in Persian walnut (Juglans regia L.)
Cited by: 29
Author(s): Anthony Bernard, Annarita Marrano, Armel Donkpegan, Patrick J. Brown, Charles A. Leslie, David B. Neale, Fabrice Lheureux, Elisabeth Dirlewanger
Software Mentions: 6
Published: over 4 years ago

10.1111/mpp.12964

A complex network of additive and epistatic quantitative trait loci underlies natural variation of Arabidopsis thaliana quantitative disease resistance to Ralstonia solanacearum under heat stress
Cited by: 22
Author(s): Nathalie Aoun, Henri Desaint, Léa Boyrie, Maxime Bonhomme, Laurent Deslandes, Richard Berthomé, Fabrice Roux
Software Mentions: 6
Published: about 4 years ago

10.1186/s12859-018-2512-8

A statistical framework for detecting mislabeled and contaminated samples using shallow-depth sequence data
Cited by: 9
Author(s): A. M. C. Chan, Amy L. Williams, Jean‐Luc Jannink
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0130329

Exome Analyses of Long QT Syndrome Reveal Candidate Pathogenic Mutations in Calmodulin-Interacting Genes
Cited by: 26
Author(s): Daichi Shigemizu, Takeshi Aiba, Hidewaki Nakagawa, Kouichi Ozaki, Fuyuki Miya, Wataru Satake, Tatsushi Toda, Yoshihiro Miyamoto, Akihiro Fujimoto, Yutaka Suzuki, Michiaki Kubo, Tatsuhiko Tsunoda, Wataru Shimizu, Toshihiro Tanaka
Software Mentions: 3
Published: over 9 years ago

10.1038/s42003-021-02380-y

Adaptive divergence and post-zygotic barriers to gene flow between sympatric populations of a herbivorous mite
Cited by: 10
Author(s): Ernesto Villacis‐Perez, Simon Snoeck, Andre H. Kurlovs, Richard M. Clark, Johannes A. J. Breeuwer, Thomas Van Leeuwen
Software Mentions: 3
Published: about 3 years ago

10.1111/eva.12580

Great tits and the city: Distribution of genomic diversity and gene–environment associations along an urbanization gradient
Cited by: 40
Author(s): Charles Perrier, Ana Lozano del Campo, Marta Szulkin, Virginie Demeyrier, Arnaud Grégoire, Anne Charmantier
Software Mentions: 3
Published: almost 7 years ago

10.1093/g3journal/jkaa027

Whole-genome sequencing from the New Zealand Saccharomyces cerevisiae population reveals the genomic impacts of novel microbial range expansion
Cited by: 2
Author(s): Peter J. Higgins, Cooper Alastair Grace, Soon Lee, Matthew R. Goddard
Software Mentions: 3
Published: almost 4 years ago

10.1093/g3journal/jkab002

De novowhole-genome assembly and resequencing resources for the roan (Hippotragus equinus), an iconic African antelope
Cited by: 4
Author(s): Margarida Gonçalves, Hans R. Siegismund, Bettine Jansen van Vuuren, Klaus‐Peter Koepfli, Nathalie Ferrand, Raquel Godinho
Software Mentions: 3
Published: over 3 years ago

10.1186/s12862-018-1296-9

Phylogenomics of a putatively convergent novelty: did hypertrophied lips evolve once or repeatedly in Lake Malawi cichlid fishes?
Cited by: 14
Author(s): C. Darrin Hulsey, Jimmy Zheng, Roi Holzman, Michael E. Alfaro, Melisa Olave, Axel Meyer
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0238383

Optimization of the genotyping‐by‐sequencing SNP calling for diversity analysis in cape gooseberry (Physalis peruviana L.) and related taxa
Cited by: 4
Author(s): Felix E. Enciso-Rodríguez, Jaime A. Osorio-Guarín, Gina A. Garzón-Martínez, Paola Delgadillo-Durán, Luz Stella Barrero
Software Mentions: 2
Published: about 4 years ago

10.1186/s12864-016-2568-7

Association analysis for disease resistance to Fusarium oxysporum in cape gooseberry (Physalis peruviana L)
Cited by: 32
Author(s): Jaime A. Osorio-Guarín, Felix E. Enciso-Rodríguez, Carolina González, Noé Fernández-Pozo, Lukas A. Mueller, Luz Stella Barrero
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-019-45895-5

Comparative transcriptome analysis of cultivated and wild seeds of Salvia hispanica (chia)
Cited by: 22
Author(s): Pablo Peláez, Domancar Orona‐Tamayo, Salvador Montes‐Hernández, María Elena Valverde, Octavio Paredes‐López, Angélica Cibrián-Jaramillo
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pgen.1007989

Genetics of adaptation in modern chicken
Cited by: 67
Author(s): Saber Qanbari, Carl-Johan Rubin, Khurram Maqbool, Steffen Weigend, Annett Weigend, Johannes Geibel, Susanne Kerje, Christine Wurmser, A. Townsend Peterson, I. Lehr Brisbin, R. Preisinger, R. Fries, Henner Simianer, Leif Andersson
Software Mentions: 2
Published: over 5 years ago

10.1002/ece3.4651

Dissecting a potential spandrel of adaptive radiation: Body depth and pectoral fin ecomorphology coevolve in Lake Malawi cichlid fishes
Cited by: 14
Author(s): C. Darrin Hulsey, Roi Holzman, Axel Meyer
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0188920

Whole genome sequencing of Oryza sativa L. cv. Seeragasamba identifies a new fragrance allele in rice
Cited by: 21
Author(s): Ganigara Bindusree, Purushothaman Natarajan, Sukesh Kalva, Madasamy Parani
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-019-42885-5

Evaluation of a Chicken 600K SNP genotyping array in non-model species of grouse
Cited by: 6
Author(s): Piotr Minias, Peter O. Dunn, Linda A. Whittingham, Jeff Johnson, Sara J. Oyler‐McCance
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-020-62645-0

Genome-wide analyses disclose the distinctive HLA architecture and the pharmacogenetic landscape of the Somali population
Cited by: 7
Author(s): Abshir A. Ali, Mikko Aalto, Jon Jonasson, Abdimajid Osman
Software Mentions: 1
Published: over 4 years ago